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A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability.

Publication ,  Journal Article
Schmid, AK; Reiss, DJ; Pan, M; Koide, T; Baliga, NS
Published in: Molecular systems biology
January 2009

During evolution, enzyme-coding genes are acquired and/or replaced through lateral gene transfer and compiled into metabolic pathways. Gene regulatory networks evolve to fine tune biochemical fluxes through such metabolic pathways, enabling organisms to acclimate to nutrient fluctuations in a competitive environment. Here, we demonstrate that a single TrmB family transcription factor in Halobacterium salinarum NRC-1 globally coordinates functionally linked enzymes of diverse phylogeny in response to changes in carbon source availability. Specifically, during nutritional limitation, TrmB binds a cis-regulatory element to activate or repress 113 promoters of genes encoding enzymes in diverse metabolic pathways. By this mechanism, TrmB coordinates the expression of glycolysis, TCA cycle, and amino-acid biosynthesis pathways with the biosynthesis of their cognate cofactors (e.g. purine and thiamine). Notably, the TrmB-regulated metabolic network includes enzyme-coding genes that are uniquely archaeal as well as those that are conserved across all three domains of life. Simultaneous analysis of metabolic and gene regulatory network architectures suggests an ongoing process of co-evolution in which TrmB integrates the expression of metabolic enzyme-coding genes of diverse origins.

Duke Scholars

Published In

Molecular systems biology

DOI

EISSN

1744-4292

ISSN

1744-4292

Publication Date

January 2009

Volume

5

Start / End Page

282

Related Subject Headings

  • Transcription Factors
  • Stress, Physiological
  • Signal Transduction
  • Sequence Analysis, Protein
  • Sequence Alignment
  • Promoter Regions, Genetic
  • Phenotype
  • Oxidation-Reduction
  • Molecular Sequence Data
  • Metabolic Networks and Pathways
 

Citation

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Schmid, A. K., Reiss, D. J., Pan, M., Koide, T., & Baliga, N. S. (2009). A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability. Molecular Systems Biology, 5, 282. https://doi.org/10.1038/msb.2009.40
Schmid, Amy K., David J. Reiss, Min Pan, Tie Koide, and Nitin S. Baliga. “A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability.Molecular Systems Biology 5 (January 2009): 282. https://doi.org/10.1038/msb.2009.40.
Schmid, Amy K., et al. “A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability.Molecular Systems Biology, vol. 5, Jan. 2009, p. 282. Epmc, doi:10.1038/msb.2009.40.
Journal cover image

Published In

Molecular systems biology

DOI

EISSN

1744-4292

ISSN

1744-4292

Publication Date

January 2009

Volume

5

Start / End Page

282

Related Subject Headings

  • Transcription Factors
  • Stress, Physiological
  • Signal Transduction
  • Sequence Analysis, Protein
  • Sequence Alignment
  • Promoter Regions, Genetic
  • Phenotype
  • Oxidation-Reduction
  • Molecular Sequence Data
  • Metabolic Networks and Pathways